genome.fa.s8550.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008550.1 Hibiscus syriacus cultivar Beakdansim tig00111445_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1154708

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 681 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
791329--791438	29	3.8	29	92	2	186	16	20	17	45	1.85
791815--791971	64	2.5	63	79	12	178	26	18	19	35	1.95
793996--794042	21	2.3	20	79	10	51	34	2	4	59	1.29
801606--801644	6	6.8	6	88	8	55	17	25	35	20	1.95
801603--801644	11	3.7	11	84	12	59	19	23	38	19	1.93
801603--801645	17	2.5	17	96	0	77	18	23	37	20	1.94
806162--806816	243	2.7	241	85	4	833	33	11	13	41	1.79
807052--807432	108	3.5	107	81	6	428	37	12	11	38	1.79
807052--807481	108	4.0	108	78	7	406	37	13	11	38	1.80
818496--818540	22	2.0	22	82	0	54	55	8	4	31	1.51
819663--819751	27	3.3	27	93	3	144	37	14	10	38	1.80
821210--821243	2	17.0	2	100	0	68	50	0	0	50	1.00
821780--821961	53	3.3	53	86	8	222	35	25	19	19	1.95
821863--822033	31	5.5	31	94	0	297	40	22	17	19	1.91
823664--823689	13	2.0	13	100	0	52	30	23	7	38	1.83
828875--828933	29	2.0	29	93	0	100	52	11	11	23	1.71
832900--832958	29	2.0	29	96	0	109	57	13	5	23	1.56
833530--833633	33	3.2	33	95	1	183	45	17	6	30	1.74
833628--833669	21	2.0	21	95	0	75	47	7	14	30	1.71
836521--837014	229	2.2	228	95	1	884	44	7	8	39	1.62
837293--837339	20	2.4	19	86	10	67	55	8	17	19	1.67
837081--837553	181	2.6	182	89	2	702	42	13	17	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
837474--837520	20	2.4	19	82	10	67	53	10	17	19	1.72
837483--837525	20	2.3	19	88	11	63	51	11	16	20	1.75
839725--839768	21	2.1	21	86	0	61	43	11	29	15	1.82
839802--839867	33	2.0	33	90	0	105	28	0	48	22	1.51
841657--841705	19	2.6	19	93	0	80	30	2	10	57	1.43
841818--843194	200	6.9	200	97	0	2568	36	14	17	30	1.90
843838--843883	2	23.0	2	100	0	92	50	0	0	50	1.00
844361--844433	23	3.2	23	88	0	101	34	4	21	39	1.73
847646--847710	25	2.6	25	97	0	121	40	10	12	36	1.78
848053--848125	23	3.2	23	88	0	101	34	4	21	39	1.73
848542--848614	23	3.2	23	84	0	92	35	4	20	39	1.72
849032--849104	23	3.2	23	86	0	92	35	2	20	41	1.67
849523--849593	23	3.2	23	82	8	83	35	4	21	39	1.73
849547--849598	21	2.5	21	87	6	70	34	1	21	42	1.64
847713--849996	979	2.3	979	97	0	4305	41	7	10	40	1.68
847713--849996	489	4.7	490	98	0	4298	41	7	10	40	1.68
869418--869448	2	15.5	2	100	0	62	48	0	0	51	1.00
876176--876233	26	2.2	26	96	0	107	56	0	36	6	1.26
877266--877307	21	2.0	21	85	0	57	38	9	14	38	1.78
879667--879726	30	2.0	30	90	6	95	33	8	15	43	1.76
879826--879883	22	2.8	20	82	12	73	27	31	18	22	1.97
879826--879883	20	2.7	22	84	10	77	27	31	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
879904--879977	20	3.7	20	92	1	112	18	24	25	31	1.98
883184--883242	30	2.0	30	90	9	95	32	6	18	42	1.77
883322--883398	21	3.7	21	94	0	127	22	35	19	23	1.96
883426--883508	41	2.0	41	80	0	94	21	22	25	30	1.99
884980--885055	21	3.5	21	75	16	75	43	13	13	30	1.81
884980--885055	22	3.5	20	74	15	64	43	13	13	30	1.81
885507--885550	19	2.3	19	84	0	52	31	15	0	52	1.44
891454--891532	34	2.3	33	79	10	81	72	3	7	16	1.23
891729--891781	20	2.7	19	76	18	54	66	1	1	30	1.13
891730--891783	23	2.5	20	81	18	65	66	1	1	29	1.12
893126--893207	41	2.0	41	100	0	164	46	2	14	36	1.58
893574--894191	105	5.9	105	94	0	1020	22	18	25	32	1.97
894994--895027	14	2.4	14	90	0	50	0	5	11	82	0.83
895003--895029	14	1.9	14	100	0	54	0	0	11	88	0.50
904470--904503	10	3.4	10	87	0	50	73	0	5	20	1.04
905534--905611	34	2.3	32	78	8	77	71	3	7	16	1.24
905808--905860	20	2.7	19	76	18	54	66	1	1	30	1.13
905809--905862	23	2.5	20	81	18	65	66	1	1	29	1.12
907210--907291	41	2.0	41	100	0	164	46	2	14	36	1.58
908764--908855	11	8.1	11	71	19	73	18	4	2	75	1.08
908764--908819	4	15.2	4	71	17	50	17	3	1	76	1.01
908764--908856	7	12.9	7	78	5	62	18	4	2	75	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
908830--908856	8	3.4	8	100	0	54	22	0	0	77	0.76
911400--911660	95	2.7	95	88	3	362	32	16	18	32	1.94
912964--913348	64	5.7	65	73	12	258	27	18	12	41	1.87
913022--913281	37	7.4	36	68	21	149	25	18	12	43	1.85
913141--913225	42	2.0	42	88	0	125	21	15	12	50	1.77
913405--913563	79	2.0	81	83	2	205	32	23	20	22	1.98
917687--917718	15	2.1	15	94	0	55	12	25	9	53	1.68
919899--919965	18	3.7	18	76	7	64	16	4	2	76	1.08
919901--919944	15	3.0	14	81	12	52	13	4	2	79	0.98
919901--919974	31	2.4	29	82	10	78	14	5	2	77	1.07
920064--920099	12	2.8	13	87	8	56	33	2	0	63	1.08
925819--925876	25	2.4	25	97	2	109	34	27	8	29	1.87
927533--927568	19	2.0	17	89	10	54	55	2	0	41	1.14
927581--927611	16	1.9	16	93	0	53	38	0	0	61	0.96
930753--930792	16	2.5	16	84	11	55	82	2	2	12	0.87
930753--930792	17	2.5	17	88	8	57	82	2	2	12	0.87
930862--930898	19	2.1	19	85	10	51	32	10	0	56	1.34
943903--943940	12	3.2	12	92	0	67	7	15	50	26	1.72
943903--943957	24	2.3	24	90	0	83	12	14	47	25	1.80
943955--944058	2	54.5	2	74	9	83	48	0	0	51	1.00
944073--944116	13	3.5	13	87	3	63	15	15	52	15	1.75
944180--944204	6	4.2	6	100	0	50	0	64	16	20	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
952969--953010	17	2.7	15	82	13	57	14	0	28	57	1.38
952973--953006	17	2.0	17	94	0	59	11	0	32	55	1.36
955244--955287	2	22.0	2	100	0	88	50	0	0	50	1.00
965109--965159	24	2.1	24	100	0	102	25	11	15	47	1.80
965782--965836	20	2.7	21	77	8	60	21	34	23	20	1.97
966349--966409	28	2.2	28	88	5	88	29	24	1	44	1.63
972420--972485	34	1.9	34	96	0	123	46	9	4	39	1.56
973300--973678	189	2.0	189	99	0	749	40	20	13	25	1.88
987429--987582	38	4.3	35	79	13	136	44	3	7	44	1.49
987468--987582	34	3.2	35	80	13	128	46	4	6	42	1.48
988805--988853	18	2.6	19	78	12	57	20	4	4	71	1.19
988920--988997	5	14.8	5	71	19	52	20	2	3	73	1.12
988926--988997	32	2.3	30	77	17	74	22	1	4	72	1.10
988930--988999	20	3.2	21	76	10	70	22	1	4	71	1.12
989401--989854	83	5.4	83	86	1	532	34	22	17	26	1.95
990616--990648	16	1.9	18	88	11	52	48	0	0	51	1.00
990676--990724	25	1.9	26	87	4	73	44	24	12	18	1.84
992010--992059	27	1.9	26	84	8	66	14	8	0	78	0.97
992014--992052	21	1.9	20	85	15	53	12	10	0	76	1.01
992024--992070	16	3.1	16	76	14	55	10	10	0	78	0.96
992038--992179	23	5.8	24	69	22	64	13	7	2	76	1.08
992027--992083	29	2.0	29	82	3	71	10	10	1	77	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
992087--992122	18	2.1	17	89	5	54	11	5	5	77	1.10
992085--992122	17	2.1	18	90	9	60	13	5	5	76	1.13
992099--992181	17	4.5	17	71	16	51	15	7	0	77	0.98
992043--992181	28	4.8	28	73	15	90	13	7	2	76	1.08
992107--992173	21	3.2	21	78	17	68	14	5	0	79	0.92
996056--996088	16	2.1	16	100	0	66	12	30	9	48	1.71
996909--996954	18	2.6	18	86	3	67	39	8	23	28	1.84
997500--997570	28	2.6	28	84	6	92	43	33	8	14	1.75
1006100--1006260	85	1.8	86	81	5	198	29	17	10	42	1.83
1019271--1019310	5	8.0	5	97	0	62	80	0	15	5	0.88

Tables:   1   2   3   4   5   6